@@ -484,8 +496,8 @@ General output directory organization is :
\item A configuration name using command line option \texttt{-n my\_name} or \texttt{--name my\_name} is used to name subdirectories.
\item Parental Origin Probabilities are output as CSV files
\begin{description}
\item [1-point] one file per marker (with pedigree like structure),
\item [n-point] one file per linkage group per generation per individual
\item [1-point] one file per marker (with pedigree like structure), use option \texttt{-O1} in command \texttt{spell-marker} to output these files
\item [n-point] one file per linkage group per generation per individual, use model option \texttt{output-nppop} in command \texttt{spell-qtl} to output these files.
\end{description}
\item a report containing
\begin{itemize}
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@@ -498,12 +510,6 @@ General output directory organization is :
\section{Output files samples}
\subsection{1-point POP}
%\lstinputlisting[%numbers=left,
%frame=single,
%breaklines=false,
%caption={[1-point output file] 1-point output file (selected lines from my\_name.pedigree-and-probabilities.M_1_1.csv from my\_directory/my\_name.1-point/)},
%linerange={1-12,107-112}
% ]
\lstinputlisting[numbers=left,
frame=single,
caption={[1-point output file] 1-point output file (selected lines from file \texttt{my\_name.pedigree-and-probabilities.M\_1\_1.csv} in directory \texttt{my\_directory/my\_name.1-point/} ) },%(selected lines from my\_name.pedigree-and-probabilities.M_1_1.csv from my\_directory/my\_name.1-point/)},
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@@ -512,6 +518,8 @@ General output directory organization is :
Note that you must use \texttt{-01} command line option in \texttt{spell-marker} in order to generate these files.